Phylogenetic relationships for P. pacificus Diapausins and reverse transcriptases. (A) Maximum likelihood tree of Diapausin genes including six P. pacificus HGT candidates. Node labels indicate bootstrap support values (100 replications). All P. pacificus Diapausins show the closest similarity to a sequence from leaf beetle (Gastrophysa atrocyanea). (B) Phylogenetic tree of reverse transcriptase proteins from P. pacificus and other nematode and insect sequences. The two P. pacificus reverse transcriptases show highest similarity to a sequence from the postman butterfly (Heliconius melpomene). (C) Genes in a 40 kb locus on Contig15 of the P. pacificus Hybrid 1 assembly. The locus is bounded by an endonuclease and a reverse transcriptase and contains eight embedded genes. Seven of these genes do not show homology to any other known sequences. The only non-orphan gene is a copper transporter with homology to C. elegans F58G6.3.